Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0007614

Physical Location & Seq

Genomic Coordinates Reverse (-)

31841600 .. 31845208

Gene Structure 3609 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00409320.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 978 bp

ATGGCGGAGCACTTGGCATCGATCTTCGGCACAGAGAAGGACAGGGTTAACTGCCCTTTCTACTTCAAGATCGGCGCCTGCCGACATGGCGACCGCTGCTCTCGCCTCCACACCAAGCCCAGCATCAGCCCCACCCTTCTCCTCTCCAACATGTACCAGCGCCCCGATATGCTCACCAACCCCGGCGTCGACCCCCAGGGCCAGGCCCTCGACCCCCGCAAGATCCAAGACAACTTCGAGGATTTCTATGAGGATCTATTCGAGGAGCTGAGCAAGTACGGACAGATCGAGAGCTTGAATATCTGTGATAATTTGGCTGACCACATGGTTGGGAATGTGTACGTTCAGTTCAGGGAGGAAGAACATGCTGCCGCCGCGCTTCAGAATCTCACTGGGAGGTTCTATGCAGGGCGCCCCATCATTGTTGACTTTTCACCGGTGACCGACTTCCGTGAAGCTACATGTAGGCAGTATGAAGAAAATGTATGCAATCGAGGTGGCTACTGCAATTTCATGCATTTGAAGAAGATTAGCAGGGAATTGAGGAGGCGATTATTTGGAAGAAACAGGCGAAGGCGGAGCCGCAGTCGCAGCAGAAGCCATAGTCCTCAAAAGCATCAGCGTGGTGGTTATCAGGAGCGTCCACATGGAGGTCGTGGTTTTGGCAGAAGAGGAGGAGATGATGAGAGAGATCGTTTCAATGATAAAAACAGGAGGCCTAGAAGCCGTAGTCCTGGTGGACGTAGAGGAAGAAGTAGAAGCCCTGTGGGGAGAAGGAATAGGAGTCCTCCAGCCAGGGAAAGCAGTGCTGAAAGAAGGGCCAAGATTGAGCAATGGAACAGGGAAAAGGAACAGGTTGATTCTGGAGATAAGCATGATAACAATAATAACGGCAACAATAATGATGATGAATGGAATGGTGATAATAATAGTGATCAGTACTATGATCCTCAGCAGCAGCAGCAGCAACAGCAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009314 GO:0009416 GO:0009628 GO:0009648 GO:0009791 GO:0009987 GO:0010228 GO:0010467 GO:0016070 GO:0016071 GO:0022414 GO:0030628 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0036002 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048573 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0071704 GO:0089701 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 ko05131 map03040 map05131

Pfam Domains

Protein Families

RRM_1 zf-CCCH

Protein Analysis

325

Amino Acids

37.94

Weight (kDa)

9.5

Isoelectric Point (pI)

78.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	14 - 37	2.5e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
RRM_1	PF00076	84 - 140	2.7e-07	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007614)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G44785
fragaria_vesca	FvH4_6g17780
malus_domestica	MD00G1150600.v1.1 MD03G1134000.v1.1 MD12G1016800.v1.1 MD12G1094300.v1.1 MD14G1014800.v1.1
prunus_persica	Prupe.7G118600_v2.0.a1
pyrus_communis	pycom03g09010 pycom12g01370 pycom14g01230
rosa_chinensis	RchiOBHm_Chr3g0472021
rosa_laevigata	RLG00000024111
rosa_multiflora	Rmu_sc0000090.1_g000034 Rmu_sc0002532.1_g000005 Rmu_sc0002532.1_g000007 Rmu_sc0002532.1_g000008
rosa_roxburghii	Rroxscaffold_6G00409320
rosa_rugosa	Rorug03G0121700
rosa_samantha	Rh3AG173300 Rh3BG198700 Rh3CG189900 Rh3CG197200
rosa_wichuraiana	Rw3G016730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	74, 411
AccI	GTMKAC	1 cut(s)	189
AccII	CGCG	1 cut(s)	377
AciI	CCGC	7 cut(s)	5, 94, 217, 372, 375, 577, 583
AclWI	GGATC	3 cut(s)	217, 261, 941
AcuI	CTGAAG	1 cut(s)	365
AcyI	GRCGYC	3 cut(s)	75, 186, 412
AfaI	GTAC	4 cut(s)	155, 278, 341, 941
AfiI	CCNNNNNNNGG	2 cut(s)	202, 650
AflIII	ACRYGT	2 cut(s)	150, 461
AgeI	ACCGGT	1 cut(s)	436
AgsI	TTSAA	4 cut(s)	67, 298, 523, 700
AjnI	CCWGG	4 cut(s)	195, 201, 733, 794
AluBI	AGCT	3 cut(s)	268, 294, 458
AluI	AGCT	3 cut(s)	268, 294, 458
Alw21I	GWGCWC	1 cut(s)	12
AlwI	GGATC	3 cut(s)	217, 261, 941
AoxI	GGCC	4 cut(s)	199, 204, 716, 819
ApeKI	GCWGC	7 cut(s)	96, 368, 591, 955, 958, 961, 964
AsiGI	ACCGGT	1 cut(s)	436
AspLEI	GCGC	4 cut(s)	77, 162, 379, 414
AspS9I	GGNCC	3 cut(s)	199, 205, 819
AsuC2I	CCSGG	1 cut(s)	183
AsuHPI	GGTGA	4 cut(s)	166, 426, 451, 932
BanI	GGYRCC	2 cut(s)	74, 411
Bbv12I	GWGCWC	1 cut(s)	12
BbvCI	CCTCAGC	1 cut(s)	951
BbvI	GCAGC	6 cut(s)	83, 355, 603, 967, 970, 973
BccI	CCATC	1 cut(s)	425
BceAI	ACGGC	2 cut(s)	711, 907
BciT130I	CCWGG	4 cut(s)	197, 203, 735, 796
BclI	TGATCA	1 cut(s)	934
BcnI	CCSGG	1 cut(s)	183
BfaI	CTAG	1 cut(s)	720
BfoI	RGCGCY	3 cut(s)	78, 163, 415
BglI	GCCNNNNNGGC	1 cut(s)	87
BlpI	GCTNAGC	1 cut(s)	269
BmcAI	AGTACT	1 cut(s)	941
Bme1390I	CCNGG	5 cut(s)	183, 197, 203, 735, 796
BmgT120I	GGNCC	3 cut(s)	199, 205, 819
BmiI	GGNNCC	3 cut(s)	76, 413, 581
BmrFI	CCNGG	5 cut(s)	183, 197, 203, 735, 796
BmrI	ACTGGG	1 cut(s)	402
BmsI	GCATC	3 cut(s)	26, 132, 625
BmuI	ACTGGG	1 cut(s)	402
BpmI	CTGGAG	2 cut(s)	774, 885
Bpu10I	CCTNAGC	1 cut(s)	951
Bpu1102I	GCTNAGC	1 cut(s)	269
BpuMI	CCSGG	1 cut(s)	183
Bsa29I	ATCGAT	1 cut(s)	20
BsaHI	GRCGYC	3 cut(s)	75, 186, 412
BsaJI	CCNNGG	4 cut(s)	181, 195, 196, 795
BsaWI	WCCGGW	1 cut(s)	436
BsaXI	ACNNNNNCTCC	2 cut(s)	571, 601
Bsc4I	CCNNNNNNNGG	2 cut(s)	202, 650
Bse118I	RCCGGY	1 cut(s)	436
Bse1I	ACTGG	1 cut(s)	397
Bse3DI	GCAATG	1 cut(s)	839
BseBI	CCWGG	4 cut(s)	197, 203, 735, 796
BseCI	ATCGAT	1 cut(s)	20
BseDI	CCNNGG	4 cut(s)	181, 195, 196, 795
BseLI	CCNNNNNNNGG	2 cut(s)	202, 650
BseMI	GCAATG	1 cut(s)	839
BseMII	CTCAG	2 cut(s)	260, 965
BseNI	ACTGG	1 cut(s)	397
BseRI	GAGGAG	5 cut(s)	131, 278, 559, 687, 690
BseXI	GCAGC	6 cut(s)	83, 355, 603, 967, 970, 973
BseYI	CCCAGC	1 cut(s)	119
Bsh1236I	CGCG	1 cut(s)	377
Bsh1285I	CGRYCG	1 cut(s)	94
BshFI	GGCC	4 cut(s)	201, 206, 718, 821
BshNI	GGYRCC	2 cut(s)	74, 411
BshTI	ACCGGT	1 cut(s)	436
BshVI	ATCGAT	1 cut(s)	20
BsiEI	CGRYCG	1 cut(s)	94
BsiHKAI	GWGCWC	1 cut(s)	12
BsiSI	CCGG	2 cut(s)	183, 437
BslI	CCNNNNNNNGG	2 cut(s)	202, 650
BsnI	GGCC	4 cut(s)	201, 206, 718, 821
Bsp1286I	GDGCHC	1 cut(s)	12
Bsp143I	GATC	8 cut(s)	21, 69, 222, 253, 285, 691, 934, 946
Bsp1720I	GCTNAGC	1 cut(s)	269
BspACI	CCGC	7 cut(s)	5, 94, 217, 372, 375, 577, 583
BspANI	GGCC	4 cut(s)	201, 206, 718, 821
BspCNI	CTCAG	2 cut(s)	261, 964
BspDI	ATCGAT	1 cut(s)	20
BspFNI	CGCG	1 cut(s)	377
BspLI	GGNNCC	3 cut(s)	76, 413, 581
BspPI	GGATC	3 cut(s)	217, 261, 941
BspT107I	GGYRCC	2 cut(s)	74, 411
BsrDI	GCAATG	1 cut(s)	839
BsrFI	RCCGGY	1 cut(s)	436
BsrI	ACTGG	1 cut(s)	397
BssAI	RCCGGY	1 cut(s)	436
BssECI	CCNNGG	4 cut(s)	181, 195, 196, 795
BssMI	GATC	8 cut(s)	21, 69, 222, 253, 285, 691, 934, 946
BssNI	GRCGYC	3 cut(s)	75, 186, 412
Bst2UI	CCWGG	4 cut(s)	197, 203, 735, 796
Bst6I	CTCTTC	1 cut(s)	664
BstACI	GRCGYC	3 cut(s)	75, 186, 412
BstC8I	GCNNGC	1 cut(s)	79
BstDEI	CTNAG	2 cut(s)	269, 951
BstEII	GGTNACC	1 cut(s)	439
BstFNI	CGCG	1 cut(s)	377
BstH2I	RGCGCY	3 cut(s)	78, 163, 415
BstHHI	GCGC	4 cut(s)	77, 162, 379, 414
BstKTI	GATC	8 cut(s)	24, 72, 225, 256, 288, 694, 937, 949
BstMBI	GATC	8 cut(s)	21, 69, 222, 253, 285, 691, 934, 946
BstMCI	CGRYCG	1 cut(s)	94
BstNI	CCWGG	4 cut(s)	197, 203, 735, 796
BstNSI	RCATGY	3 cut(s)	154, 368, 465
BstPI	GGTNACC	1 cut(s)	439
BstSCI	CCNGG	5 cut(s)	181, 195, 201, 733, 794
BstUI	CGCG	1 cut(s)	377
BstV1I	GCAGC	6 cut(s)	83, 355, 603, 967, 970, 973
BstX2I	RGATCY	2 cut(s)	222, 253
BstXI	CCANNNNNNTGG	1 cut(s)	329
BstYI	RGATCY	2 cut(s)	222, 253
Bsu15I	ATCGAT	1 cut(s)	20
BsuRI	GGCC	4 cut(s)	201, 206, 718, 821
BsuTUI	ATCGAT	1 cut(s)	20
BtsI	GCAGTG	1 cut(s)	811
BtsIMutI	CAGTG	2 cut(s)	390, 811
Cac8I	GCNNGC	1 cut(s)	79
CfoI	GCGC	4 cut(s)	77, 162, 379, 414
Cfr10I	RCCGGY	1 cut(s)	436
Cfr13I	GGNCC	3 cut(s)	199, 205, 819
ClaI	ATCGAT	1 cut(s)	20
CseI	GACGC	2 cut(s)	175, 629
Csp6I	GTAC	4 cut(s)	154, 277, 340, 940
CspAI	ACCGGT	1 cut(s)	436
CspCI	CAANNNNNGTGG	2 cut(s)	478, 513
CviAII	CATG	8 cut(s)	86, 151, 325, 365, 462, 514, 647, 875
CviQI	GTAC	4 cut(s)	154, 277, 340, 940
DdeI	CTNAG	2 cut(s)	269, 951
DinI	GGCGCC	2 cut(s)	76, 413
DpnI	GATC	8 cut(s)	23, 71, 224, 255, 287, 693, 936, 948
DpnII	GATC	8 cut(s)	21, 69, 222, 253, 285, 691, 934, 946
Eam1104I	CTCTTC	1 cut(s)	664
EarI	CTCTTC	1 cut(s)	664
EciI	GGCGGA	2 cut(s)	20, 592
Eco147I	AGGCCT	1 cut(s)	718
Eco57I	CTGAAG	1 cut(s)	365
Eco91I	GGTNACC	1 cut(s)	439
EcoO109I	RGGNCCY	1 cut(s)	205
EcoO65I	GGTNACC	1 cut(s)	439
EcoRII	CCWGG	4 cut(s)	195, 201, 733, 794
EcoT22I	ATGCAT	1 cut(s)	519
EgeI	GGCGCC	2 cut(s)	76, 413
EheI	GGCGCC	2 cut(s)	76, 413
FaeI	CATG	8 cut(s)	89, 154, 328, 368, 465, 517, 650, 878
FatI	CATG	8 cut(s)	85, 150, 324, 364, 461, 513, 646, 874
FauI	CCCGC	1 cut(s)	224
FbaI	TGATCA	1 cut(s)	934
FblI	GTMKAC	1 cut(s)	189
FspBI	CTAG	1 cut(s)	720
GlaI	GCGC	4 cut(s)	76, 161, 378, 413
GsaI	CCCAGC	1 cut(s)	123
GsuI	CTGGAG	2 cut(s)	774, 885
HaeII	RGCGCY	3 cut(s)	78, 163, 415
HaeIII	GGCC	4 cut(s)	201, 206, 718, 821
HapII	CCGG	2 cut(s)	183, 437
HgaI	GACGC	2 cut(s)	175, 629
HhaI	GCGC	4 cut(s)	77, 162, 379, 414
Hin1I	GRCGYC	3 cut(s)	75, 186, 412
Hin1II	CATG	8 cut(s)	89, 154, 328, 368, 465, 517, 650, 878
Hin6I	GCGC	4 cut(s)	75, 160, 377, 412
HinP1I	GCGC	4 cut(s)	75, 160, 377, 412
HincII	GTYRAC	3 cut(s)	49, 190, 427
HindII	GTYRAC	3 cut(s)	49, 190, 427
HinfI	GANTC	3 cut(s)	385, 784, 860
HpaI	GTTAAC	1 cut(s)	49
HpaII	CCGG	2 cut(s)	183, 437
HphI	GGTGA	4 cut(s)	166, 426, 451, 932
Hpy166II	GTNNAC	6 cut(s)	49, 190, 340, 427, 644, 740
Hpy188I	TCNGA	1 cut(s)	384
Hpy188III	TCNNGA	4 cut(s)	67, 289, 635, 864
Hpy8I	GTNNAC	6 cut(s)	49, 190, 340, 427, 644, 740
Hpy99I	CGWCG	1 cut(s)	191
HpyAV	CCTTC	5 cut(s)	31, 146, 567, 768, 810
HpyCH4IV	ACGT	2 cut(s)	342, 742
HpyCH4V	TGCA	4 cut(s)	407, 489, 507, 517
HpyF3I	CTNAG	2 cut(s)	269, 951
HpySE526I	ACGT	2 cut(s)	342, 742
Hsp92I	GRCGYC	3 cut(s)	75, 186, 412
Hsp92II	CATG	8 cut(s)	89, 154, 328, 368, 465, 517, 650, 878
HspAI	GCGC	4 cut(s)	75, 160, 377, 412
KasI	GGCGCC	2 cut(s)	74, 411
Ksp22I	TGATCA	1 cut(s)	934
KspAI	GTTAAC	1 cut(s)	49
Kzo9I	GATC	8 cut(s)	21, 69, 222, 253, 285, 691, 934, 946
LmnI	GCTCC	4 cut(s)	7, 265, 579, 637
Lsp1109I	GCAGC	6 cut(s)	83, 355, 603, 967, 970, 973
LweI	GCATC	3 cut(s)	26, 132, 625
MaeI	CTAG	1 cut(s)	720
MaeII	ACGT	2 cut(s)	342, 742
MaeIII	GTNAC	1 cut(s)	439
MalI	GATC	8 cut(s)	23, 71, 224, 255, 287, 693, 936, 948
MboI	GATC	8 cut(s)	21, 69, 222, 253, 285, 691, 934, 946
MboII	GAAGA	8 cut(s)	16, 371, 488, 535, 538, 573, 681, 762
MflI	RGATCY	2 cut(s)	222, 253
MhlI	GDGCHC	1 cut(s)	12
MluCI	AATT	3 cut(s)	310, 508, 539
Mly113I	GGCGCC	2 cut(s)	75, 412
MlyI	GAGTC	1 cut(s)	793
MmeI	TCCRAC	1 cut(s)	171
Mph1103I	ATGCAT	1 cut(s)	519
MseI	TTAA	1 cut(s)	48
MslI	CAYNNNNRTG	1 cut(s)	621
MspA1I	CMGCKG	1 cut(s)	96
MspI	CCGG	2 cut(s)	183, 437
MspR9I	CCNGG	5 cut(s)	183, 197, 203, 735, 796
MvaI	CCWGG	4 cut(s)	197, 203, 735, 796
MvnI	CGCG	1 cut(s)	377
NarI	GGCGCC	2 cut(s)	75, 412
NciI	CCSGG	1 cut(s)	183
NdeII	GATC	8 cut(s)	21, 69, 222, 253, 285, 691, 934, 946
NlaIII	CATG	8 cut(s)	89, 154, 328, 368, 465, 517, 650, 878
NlaIV	GGNNCC	3 cut(s)	76, 413, 581
NmuCI	GTSAC	1 cut(s)	439
NsiI	ATGCAT	1 cut(s)	519
NspI	RCATGY	3 cut(s)	154, 368, 465
PasI	CCCWGGG	1 cut(s)	196
PceI	AGGCCT	1 cut(s)	718
PciI	ACATGT	2 cut(s)	150, 461
PcsI	WCGNNNNNNNCGW	1 cut(s)	285
PfeI	GAWTC	2 cut(s)	385, 860
PinAI	ACCGGT	1 cut(s)	436
PleI	GAGTC	1 cut(s)	792
PluTI	GGCGCC	2 cut(s)	78, 415
PpsI	GAGTC	1 cut(s)	792
PscI	ACATGT	2 cut(s)	150, 461
Psp6I	CCWGG	4 cut(s)	195, 201, 733, 794
PspEI	GGTNACC	1 cut(s)	439
PspFI	CCCAGC	1 cut(s)	119
PspGI	CCWGG	4 cut(s)	195, 201, 733, 794
PspN4I	GGNNCC	3 cut(s)	76, 413, 581
PspPI	GGNCC	3 cut(s)	199, 205, 819
PsrI	GAACNNNNNNTAC	2 cut(s)	332, 364
PsuI	RGATCY	2 cut(s)	222, 253
RsaI	GTAC	4 cut(s)	155, 278, 341, 941
RsaNI	GTAC	4 cut(s)	154, 277, 340, 940
RseI	CAYNNNNRTG	1 cut(s)	621
SalI	GTCGAC	1 cut(s)	188
SaqAI	TTAA	1 cut(s)	48
Sau3AI	GATC	8 cut(s)	21, 69, 222, 253, 285, 691, 934, 946
Sau96I	GGNCC	3 cut(s)	199, 205, 819
ScaI	AGTACT	1 cut(s)	941
SchI	GAGTC	1 cut(s)	793
ScrFI	CCNGG	5 cut(s)	183, 197, 203, 735, 796
SduI	GDGCHC	1 cut(s)	12
SetI	ASST	9 cut(s)	270, 296, 345, 401, 460, 499, 655, 745, 858
SfaNI	GCATC	3 cut(s)	26, 132, 625
SfoI	GGCGCC	2 cut(s)	76, 413
SgrAI	CRCCGGYG	1 cut(s)	436
SmiMI	CAYNNNNRTG	1 cut(s)	621
Sse9I	AATT	3 cut(s)	310, 508, 539
SseBI	AGGCCT	1 cut(s)	718
SsiI	CCGC	7 cut(s)	5, 94, 217, 372, 375, 577, 583
SspDI	GGCGCC	2 cut(s)	74, 411
SspMI	CTAG	1 cut(s)	720
StuI	AGGCCT	1 cut(s)	718
StyD4I	CCNGG	5 cut(s)	181, 195, 201, 733, 794
TaiI	ACGT	2 cut(s)	345, 745
TaqI	TCGA	7 cut(s)	20, 189, 210, 237, 261, 288, 493
TaqII	GACCGA	1 cut(s)	458
TasI	AATT	3 cut(s)	310, 508, 539
TatI	WGTACW	1 cut(s)	939
TauI	GCSGC	3 cut(s)	374, 377, 585
TfiI	GAWTC	2 cut(s)	385, 860
Tru1I	TTAA	1 cut(s)	48
Tru9I	TTAA	1 cut(s)	48
TscAI	CASTG	2 cut(s)	397, 811
TseFI	GTSAC	1 cut(s)	439
TseI	GCWGC	7 cut(s)	96, 368, 591, 955, 958, 961, 964
Tsp45I	GTSAC	1 cut(s)	439
TspDTI	ATGAA	3 cut(s)	489, 502, 924
TspGWI	ACGGA	2 cut(s)	294, 440
TspRI	CASTG	2 cut(s)	397, 811
XceI	RCATGY	3 cut(s)	154, 368, 465
XmiI	GTMKAC	1 cut(s)	189
XspI	CTAG	1 cut(s)	720
ZrmI	AGTACT	1 cut(s)	941
Zsp2I	ATGCAT	1 cut(s)	519

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.